[BioRuby] hmmer3

[Naohisa GOTO]

Hi Ben,

HMMER3 result parser is written by Christian.
https://github.com/cmzmasek/bioruby

I guess it may be enough quality, except RDF/XML support
which is experimental.

I'd like to discuss that the class name Bio::Hmmer3Report
is suitable. For HMMER2, Bio::HMMER::Report.

Naohisa Goto
ngoto at gen-info.osaka-u.ac.jp / ng at bioruby.org

On Wed, 16 May 2012 21:09:24 +1000
Ben Woodcroft <donttrustben at gmail.com> wrote:

> Hi guys,
> 
> I noticed today that there isn't HMMER3 support in bioruby - particularly
> I'm interested in a parser for hmmsearch outputs as I want to iterate over
> aligned positions.
> 
> I noticed that there is mention of this in the 1.4.1 release notes, that
> hmmer3 will be supported in 1.5, although I'm not sure what exactly this
> means.
> http://news.open-bio.org/news/2010/10/bioruby-1-4-1-released/
> 
> Can I ask what the state of this merge is please? Is there code somewhere
> just waiting to be merged? Can it be quickly spun out into a biogem in the
> meantime?
> 
> Thanks,
> ben
> 
> -- 
> Ben Woodcroft
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